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[farmshare-discuss] How to submit batch jobs on barley?

Alex Chekholko chekh at stanford.edu
Tue Mar 13 21:31:09 PDT 2012


Hi Masha,

I don't think anyone got back to you on this.

The answer is a mystery but if it happens again, we'll investigate.

If you know the jobid, you can use the 'qacct' command on machine senpai1 to look through the information for completed jobs.

Regards,
Alex

On Mar 10, 2012, at 4:58 PM, Masha Baryakhtar wrote:

> Hello,
> 
> Follow-up to this question. I submitted some jobs two days ago, with the command
> 
> qsub -cwd -M mbaryakh at stanford.edu ./jobs_barley.sh
> 
> They were queued up with code qw every time I checked, and now they
> are gone from the list. It looks like the jobs never started: there is
> no output, I have received no emails, and the error files are blank.
> Is there any way to tell why the wait time is so long and why its
> failing?
> 
> Thanks for your help,
> Masha
> 
> 
> On Tue, Mar 6, 2012 at 3:38 PM, Alex Chekholko <chekh at stanford.edu> wrote:
>> On 03/06/2012 03:29 PM, Ken Van Tilburg wrote:
>>> 
>>>  I know you cannot submit an executable with "qsub", so I tried running
>>> a script that executes this "generate_events" executable, but when I
>>> type "qstat -j <JOBID>", I get a bunch of output that says the job was
>>> never queued up because all the clusters were overloaded/full.
>> 
>> 
>> You definitely can submit an executable to qsub, just use the -b flag, e.g.:
>> 
>> [chekh at corn22.stanford.edu] ~ [0]
>> $ qsub hostname
>> Unable to read script file because of error: error opening hostname: No such
>> file or directory
>> [chekh at corn22.stanford.edu] ~ [14]
>> $ qsub -b y hostname
>> Your job 116705 ("hostname") has been submitted
>> 
>> Your jobs are queued up but not yet running because the cluster is full.
>>  Just like my job 116705.  It's in state 'qw'.
>> 
>> Regards,
>> --
>> Alex Chekholko chekh at stanford.edu 347-401-4860
>> _______________________________________________
>> farmshare-discuss mailing list
>> farmshare-discuss at lists.stanford.edu
>> https://mailman.stanford.edu/mailman/listinfo/farmshare-discuss
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-- 
Alex Chekholko chekh at stanford.edu 347-401-4860




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